Ahmed Mohamed M S, Ji Wen, Wang Muyue, Bian Shiquan, Xu Meng, Wang Weiyun, Zhang Jiangxiang, Xu Zhihao, Yu Meimei, Liu Qiaoquan, Zhang Changquan, Zhang Honggen, Tang Shuzhu, Gu Minghong, Yu Hengxiu
Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China; Department of Crop Protection, Faculty of Agriculture, University of Khartoum, Khartoum North 13314, Sudan.
Key Laboratory of Plant Functional Genomics of the Ministry of Education, Jiangsu Key Laboratory of Crop Genetics and Physiology/Co-Innovation Center for Modern Production Technology of Grain Crops, Yangzhou University, Yangzhou 225009, China.
Gene. 2017 Sep 10;628:38-47. doi: 10.1016/j.gene.2017.07.015. Epub 2017 Jul 9.
Rice black-streaked dwarf virus (RBSDV), a member of the genus Fijivirus in the family Reoviridae, causes significant economic losses in rice production in China and many other Asian countries. Although a great deal of effort has been made to elucidate the interactions among the virus, insect vectors, host and environmental conditions, few RBSDV proteins involved in pathogenesis have been identified, and the biological basis of disease development in rice remains largely unknown. Transcriptomic information associated with the disease development in rice would be helpful to unravel the biological mechanism. To determine how the rice transcriptome changes in response to RBSDV infection, we carried out RNA-Seq to perform a genome-wide gene expression analysis of a susceptible rice cultivar KTWYJ3. The transcriptomes of RBSDV-infected samples were compared to those of RBSDV-free (healthy) at two time points (time points are represented by group I and II). The results derived from the differential expression analysis in RBSDV-infected libraries vs. healthy ones in group I revealed that 102 out of a total of 281 significant differentially expressed genes (DEGs) were up-regulated and 179 DEGs were down-regulated. Of the 2592 identified DEGs in group II, 1588 DEGs were up-regulated and 1004 DEGs were down-regulated. A total of 66 DEGs were commonly identified in both groups. Of these 66 DEGs, expression patterns for 36 DEGs were similar in both groups. Our analysis demonstrated that some genes related to disease defense and stress resistance were up-regulated while genes associated with chloroplast were down-regulated in response to RBSDV infection. In addition, some genes associated with plant-height were differentially expressed. This result indicates those genes might be involved in dwarf symptoms caused by RBSDV. Taken together, our results provide a genome-wide transcriptome analysis for rice plants in response to RBSDV infection which may contribute to the understanding of the regulatory mechanisms involved in rice-RBSDV interaction and the biological basis of rice black-streaked dwarf disease development in rice.
水稻黑条矮缩病毒（RBSDV）是呼肠孤病毒科斐济病毒属的成员，在中国和许多其他亚洲国家的水稻生产中造成了重大经济损失。尽管人们已经付出了巨大努力来阐明病毒、昆虫介体、宿主和环境条件之间的相互作用，但很少有参与发病机制的RBSDV蛋白被鉴定出来，水稻病害发生的生物学基础在很大程度上仍然未知。与水稻病害发生相关的转录组信息将有助于揭示其生物学机制。为了确定水稻转录组如何响应RBSDV感染而变化，我们进行了RNA测序，以对感病水稻品种KTWYJ3进行全基因组基因表达分析。在两个时间点（时间点用I组和II组表示）将RBSDV感染样本的转录组与未感染RBSDV（健康）样本的转录组进行比较。I组中RBSDV感染文库与健康文库的差异表达分析结果显示，在总共281个显著差异表达基因（DEG）中，有102个上调，179个下调。在II组鉴定出的2592个DEG中，1588个上调，1004个下调。两组共鉴定出66个共同的DEG。在这66个DEG中，36个DEG的表达模式在两组中相似。我们的分析表明，一些与疾病防御和抗逆相关的基因上调，而与叶绿体相关的基因在RBSDV感染后下调。此外，一些与株高相关的基因差异表达。这一结果表明这些基因可能参与了RBSDV引起的矮化症状。综上所述，我们的结果为水稻植株响应RBSDV感染提供了全基因组转录组分析，这可能有助于理解水稻与RBSDV相互作用中的调控机制以及水稻黑条矮缩病在水稻中的发病生物学基础。
